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@DessimozLab

Dessimoz Lab

Repositories

    omamer

    OMAmer - tree-driven and alignment-free protein assignment to sub-families

    Python 0 4 0 0 Updated Aug 6, 2020

    iHam

    Widget to visualise the evolutionary history of gene families

    JavaScript 4 4 1 1 Updated Aug 5, 2020
    Python MIT 2 3 5 3 Updated Aug 1, 2020

    CoronaCoev

    coronavirus coevolution analysis

    Jupyter Notebook 0 0 0 0 Updated Jul 23, 2020

    f1000_profiling

    a short tutorial on using OMA orthology and HOG data to characterize a conserved pathway

    Jupyter Notebook 0 0 0 0 Updated Jul 15, 2020

    pyomadb

    PyOMADB is a python client to the OMA browser, using the REST API.

    Python LGPL-3.0 0 1 1 0 Updated Jun 10, 2020

    HogProf

    Phylogenetic profiling with orthology data

    Jupyter Notebook MIT 0 4 0 0 Updated May 14, 2020

    Pad1

    files and notebook related to pad1 analysis

    Jupyter Notebook 0 0 0 0 Updated May 6, 2020

    f1000_PhylogeneticTree

    A tutorial on using OMA Browser and OMA Standalone for phylogenetic species trees reconstruction. Scripts referred to in the tutorial paper can be found here.

    Python MIT 0 1 0 0 Updated May 5, 2020

    ALF

    ALF artificial life simulator

    TeX 0 0 1 0 Updated Apr 27, 2020

    pylabeledrf

    A package to compute the Robinson Fould distance extended to labeled topologies.

    Python MIT 0 0 0 0 Updated Apr 23, 2020
    Python MIT 3 2 0 0 Updated Jan 17, 2020

    OmaStandalone

    OMA standalone repository

    Python 0 0 0 0 Updated Dec 23, 2019

    f1000_OmaPrimer

    A complementary analysis to "Identifying Orthologs with OMA: A Primer" in which we show how to compare sub-types of orthologs (pairwise vs. HOG vs. OMA Group)

    Jupyter Notebook MIT 0 0 0 0 Updated Nov 27, 2019

    gethogs

    A tool to infer Hierarchical Orthologous Groups (HOGs) from pairwise orthologs

    0 0 0 0 Updated Nov 26, 2019
    Jupyter Notebook 3 1 0 0 Updated Oct 25, 2019
    Shell MIT 1 2 0 0 Updated Oct 16, 2019

    go-handbook

    Electronic exercises (with solutions) to accompany the book chapter "A Gene Ontology Tutorial in Python" by Alex Warwick Vesztrocy and Christophe Dessimoz, in the collection The Gene Ontology Handbook, C Dessimoz and N Skunca Eds, Spring Humana.

    Jupyter Notebook 3 2 0 0 Updated Feb 21, 2019

    phylo-io

    Phylo.IO JS tree viewer

    JavaScript MIT 4 18 3 0 Updated Jan 23, 2019

    treeCl

    Phylogenetic clustering package

    C++ MIT 0 0 0 0 Updated Nov 30, 2018

    pyopa

    A fast implementation of optimal pairwise alignments with python

    C MPL-2.0 0 0 1 0 Updated Nov 15, 2018

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